NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0207684_10450710

Scaffold Ga0207684_10450710


Overview

Basic Information
Taxon OID3300025910 Open in IMG/M
Scaffold IDGa0207684_10450710 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-1 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1105
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Corn, Switchgrass And Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameUSA: Michigan: Kellogg Biological Station
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F032365Metagenome / Metatranscriptome180Y
F040657Metagenome / Metatranscriptome161Y
F072411Metagenome / Metatranscriptome121Y

Sequences

Protein IDFamilyRBSSequence
Ga0207684_104507101F040657GGAGMSVETLEFLLLLSGWIVAFLLGRELQTGYRQWRLKVAEQRAPRDD
Ga0207684_104507103F032365GGGGGMPREPSYVTQLGAVLRRRDPVALRQFLLEAAERFGDTKQVTDVLGKSDDEMQELLHRMIVARPDLADLHRASREWLFRHGIDSFGETGERRN
Ga0207684_104507104F072411GAGVAWSHAVLEDDDGSYRVEVTDEDGAVFPIARQVTRAQADRLIERITVEAASSGKPVKVVIRDPYFMAATVITVKRLPD
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